{ "type": "genome", "identifier": "GCF_001650715.1", "organism": "Paramagnetospirillum marisnigri", "title": "Paramagnetospirillum marisnigri", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Research Center of Biotechnology RAS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001650715.1", "bioproject": "PRJNA224116", "biosample": "SAMN04851434", "wgs_master": "LWQT00000000.1", "refseq_category": "reference genome", "taxid": "1285242", "species_taxid": "1285242", "organism_name": "Paramagnetospirillum marisnigri", "infraspecific_name": "strain=SP-1", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/24", "asm_name": "ASM165071v1", "asm_submitter": "Research Center of Biotechnology RAS", "gbrs_paired_asm": "GCA_001650715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/650/715/GCF_001650715.1_ASM165071v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4619819", "genome_size_ungapped": "4619809", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "131", "contig_count": "131", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001650715.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "4408", "protein_coding_gene_count": "4293", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-24", "dateModified": "2016-05-24", "datePublished": "2016-05-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Paramagnetospirillum marisnigri" ], "sample_taxid": [ "1285242" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia" ], "sample_host_location_id": [], "data_size": "1.272 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4619819", "Number of Sequences": "131", "Longest Sequences (bp)": "318070", "N50 (bp)": "168256", "Gap Ratio (%)": "0.000216", "GCcontent (%)": "64.7", "Number of CDSs": "4299", "Average Protein Length": "321.4", "Coding Ratio (%)": "89.7", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Magnetospirillum marisnigri", "strain": "strain=SP-1", "accession": "GCA_001650715.1", "taxid": 1285242, "species_taxid": 1285242, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1470, "total_fragments": 1479, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Magnetospirillum kuznetsovii", "strain": "strain=LBB-42", "accession": "GCA_003284725.1", "taxid": 2053833, "species_taxid": 2053833, "relation_to_type": "type", "validated": true, "ani": 85.2112, "matched_fragments": 980, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum caucaseum", "strain": "strain=SO-1", "accession": "GCA_000342045.1", "taxid": 1244869, "species_taxid": 1244869, "relation_to_type": "type", "validated": true, "ani": 84.192, "matched_fragments": 857, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum magnetotacticum", "strain": "strain=MS-1", "accession": "GCA_000829825.1", "taxid": 188, "species_taxid": 188, "relation_to_type": "type", "validated": true, "ani": 83.3636, "matched_fragments": 892, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum moscoviense", "strain": "strain=BB-1", "accession": "GCA_001650635.1", "taxid": 1437059, "species_taxid": 1437059, "relation_to_type": "type", "validated": true, "ani": 80.6423, "matched_fragments": 673, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum aberrantis", "strain": "strain=SpK", "accession": "GCA_011022235.1", "taxid": 1105283, "species_taxid": 1105283, "relation_to_type": "type", "validated": true, "ani": 79.7357, "matched_fragments": 559, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum molischianum", "strain": "strain=DSM 120", "accession": "GCA_000294655.1", "taxid": 1083, "species_taxid": 1083, "relation_to_type": "type", "validated": true, "ani": 78.3565, "matched_fragments": 350, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pararhodospirillum oryzae", "strain": "strain=NBRC 107573", "accession": "GCA_007992075.1", "taxid": 478448, "species_taxid": 478448, "relation_to_type": "type", "validated": true, "ani": 76.6207, "matched_fragments": 249, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tistlia consotensis", "strain": "strain=DSM 21585", "accession": "GCA_900188055.1", "taxid": 1321365, "species_taxid": 1321365, "relation_to_type": "type", "validated": true, "ani": 76.51, "matched_fragments": 268, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tistlia consotensis", "strain": "strain=USBA 355", "accession": "GCA_900177295.1", "taxid": 1321365, "species_taxid": 1321365, "relation_to_type": "type", "validated": true, "ani": 76.4895, "matched_fragments": 270, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseococcus microcysteis", "strain": "strain=NIBR12", "accession": "GCA_014764365.1", "taxid": 2771361, "species_taxid": 2771361, "relation_to_type": "type", "validated": true, "ani": 76.3814, "matched_fragments": 223, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovastum atsumiense", "strain": "strain=G2-11", "accession": "GCA_937425535.1", "taxid": 504468, "species_taxid": 504468, "relation_to_type": "type", "validated": true, "ani": 76.3774, "matched_fragments": 292, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovarius crocodyli", "strain": "strain=CCP-6", "accession": "GCA_004005855.1", "taxid": 1979269, "species_taxid": 1979269, "relation_to_type": "type", "validated": true, "ani": 76.2682, "matched_fragments": 253, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas haemaphysalidis", "strain": "strain=546", "accession": "GCA_017355405.1", "taxid": 2768162, "species_taxid": 2768162, "relation_to_type": "type", "validated": true, "ani": 76.2653, "matched_fragments": 229, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseococcus thiosulfatophilus", "strain": "strain=RB-3", "accession": "GCA_017311575.1", "taxid": 35813, "species_taxid": 35813, "relation_to_type": "type", "validated": true, "ani": 76.1377, "matched_fragments": 220, "total_fragments": 1479, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001650715.1", "gtdb_species": "s__Phaeospirillum marisnigri", "ani": 100.0, "matched_fragments": 1467, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_003284725.1", "gtdb_species": "s__Phaeospirillum kuznetsovii", "ani": 85.2283, "matched_fragments": 978, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000342045.1", "gtdb_species": "s__Phaeospirillum caucaseum", "ani": 84.1966, "matched_fragments": 858, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_902729425.1", "gtdb_species": "s__Phaeospirillum sp902729425", "ani": 83.9387, "matched_fragments": 884, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000009985.1", "gtdb_species": "s__Phaeospirillum magneticum", "ani": 83.9113, "matched_fragments": 952, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002105535.1", "gtdb_species": "s__Phaeospirillum sp002105535", "ani": 83.8273, "matched_fragments": 911, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_903853455.1", "gtdb_species": "s__Phaeospirillum sp903853455", "ani": 83.7681, "matched_fragments": 929, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001511835.1", "gtdb_species": "s__Phaeospirillum sp001511835", "ani": 83.6755, "matched_fragments": 921, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000829825.1", "gtdb_species": "s__Phaeospirillum magnetotacticum", "ani": 83.3541, "matched_fragments": 891, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900184795.1", "gtdb_species": "s__Phaeospirillum sp900184795", "ani": 83.2947, "matched_fragments": 871, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_016195125.1", "gtdb_species": "s__Phaeospirillum sp016195125", "ani": 82.7291, "matched_fragments": 669, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_902729415.1", "gtdb_species": "s__Phaeospirillum magnetica_A", "ani": 82.1949, "matched_fragments": 808, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_903901915.1", "gtdb_species": "s__Phaeospirillum sp903901915", "ani": 81.8805, "matched_fragments": 751, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Paramagnetospirillum", "marisnigri" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }